Parameters Input values
Folder name : Example data
Sequence name : CDH1
Group : High methylated DNA
Experiment type : Direct-BSP
Replicate number : 2
Date of sequencing #1 : 2022-05-02
Date of sequencing #2 : 2022-05-02
Date of analysis : 2022-06-04 11:17
Prefix of output files : CDH1_High methylated DNA_2

Reference DNA

Reference DNA sequence

Reference DNA sequence information Input values
Name CDH1
Strand used for primer design Plus strand
Length 341 pb
Coordinates on reference genome chr16:68770940-68771280

Genomic DNA Sequence from plus strand (template strand):

## CCACCGGCGGGGCTGGGATTCGAACCCAGTGGAATCAGAACCGTGCAGGTCCCATAACCCACCTAGACCCTAGCAACTCCAGGCTAGAGGGTCACCGCGTCTATGCGAGGCCGGGTGGGCGGGCCGTCAGCTCCGCCCTGGGGAGGGGTCCGCGCTGCTGATTGGCTGTGGCCGGCAGGTGAACCCTCAGCCAATCAGCGGTACGGGGGGCGGTGCCTCCGGGGCTCACCTGGCTGCAGCCACGCACCCCCTCTCAGTGGCGTCGGAACTGCAAAGCACCTGTGAGCTTGCGGAAGTCAGTTCAGACTCCAGCCCGCTCCAGCCCGGCCCGACCCGACCGC

Genomic DNA Sequence from minus strand (not used):

## GCGGTCGGGTCGGGCCGGGCTGGAGCGGGCTGGAGTCTGAACTGACTTCCGCAAGCTCACAGGTGCTTTGCAGTTCCGACGCCACTGAGAGGGGGTGCGTGGCTGCAGCCAGGTGAGCCCCGGAGGCACCGCCCCCCGTACCGCTGATTGGCTGAGGGTTCACCTGCCGGCCACAGCCAATCAGCAGCGCGGACCCCTCCCCAGGGCGGAGCTGACGGCCCGCCCACCCGGCCTCGCATAGACGCGGTGACCCTCTAGCCTGGAGTTGCTAGGGTCTAGGTGGGTTATGGGACCTGCACGGTTCTGATTCCACTGGGTTCGAATCCCAGCCCCGCCGGTGG

Localization of CG dinucleotides

CG positions on plus strand

CG number chr start end C position G position
1 chr16 68770944 68770945 5 6
2 chr16 68770947 68770948 8 9
3 chr16 68770960 68770961 21 22
4 chr16 68770981 68770982 42 43
5 chr16 68771035 68771036 96 97
6 chr16 68771037 68771038 98 99
7 chr16 68771045 68771046 106 107
8 chr16 68771051 68771052 112 113
9 chr16 68771059 68771060 120 121
10 chr16 68771064 68771065 125 126
11 chr16 68771073 68771074 134 135
12 chr16 68771090 68771091 151 152
13 chr16 68771092 68771093 153 154
14 chr16 68771112 68771113 173 174
15 chr16 68771138 68771139 199 200
16 chr16 68771143 68771144 204 205
17 chr16 68771150 68771151 211 212
18 chr16 68771159 68771160 220 221
19 chr16 68771182 68771183 243 244
20 chr16 68771200 68771201 261 262
21 chr16 68771203 68771204 264 265
22 chr16 68771230 68771231 291 292
23 chr16 68771254 68771255 315 316
24 chr16 68771264 68771265 325 326
25 chr16 68771269 68771270 330 331
26 chr16 68771274 68771275 335 336
27 chr16 68771278 68771279 339 340

CG positions on minus strand

CG number chr start end C position G position
27 chr16 68771278 68771279 2 3
26 chr16 68771274 68771275 6 7
25 chr16 68771269 68771270 11 12
24 chr16 68771264 68771265 16 17
23 chr16 68771254 68771255 26 27
22 chr16 68771230 68771231 50 51
21 chr16 68771203 68771204 77 78
20 chr16 68771200 68771201 80 81
19 chr16 68771182 68771183 98 99
18 chr16 68771159 68771160 121 122
17 chr16 68771150 68771151 130 131
16 chr16 68771143 68771144 137 138
15 chr16 68771138 68771139 142 143
14 chr16 68771112 68771113 168 169
13 chr16 68771092 68771093 188 189
12 chr16 68771090 68771091 190 191
11 chr16 68771073 68771074 207 208
10 chr16 68771064 68771065 216 217
9 chr16 68771059 68771060 221 222
8 chr16 68771051 68771052 229 230
7 chr16 68771045 68771046 235 236
6 chr16 68771037 68771038 243 244
5 chr16 68771035 68771036 245 246
4 chr16 68770981 68770982 299 300
3 chr16 68770960 68770961 320 321
2 chr16 68770947 68770948 333 334
1 chr16 68770944 68770945 336 337

Bisulfite converted sequences

Converted sequence sense (template strand)

Bisulfite converted sequence of the plus strand as indicated as the template strand.

## TTATCGGCGGGGTTGGGATTCGAATTTAGTGGAATTAGAATCGTGTAGGTTTTATAATTTATTTAGATTTTAGTAATTTTAGGTTAGAGGGTTATCGCGTTTATGCGAGGTCGGGTGGGCGGGTCGTTAGTTTCGTTTTGGGGAGGGGTTCGCGTTGTTGATTGGTTGTGGTCGGTAGGTGAATTTTTAGTTAATTAGCGGTACGGGGGGCGGTGTTTTCGGGGTTTATTTGGTTGTAGTTACGTATTTTTTTTTAGTGGCGTCGGAATTGTAAAGTATTTGTGAGTTTGCGGAAGTTAGTTTAGATTTTAGTTCGTTTTAGTTCGGTTCGATTCGATCGT

Converted sequence antisense (reverse complement)

Reverse complement of the bisulfite converted sequence from the plus strand.

## ACGATCGAATCGAACCGAACTAAAACGAACTAAAATCTAAACTAACTTCCGCAAACTCACAAATACTTTACAATTCCGACGCCACTAAAAAAAAATACGTAACTACAACCAAATAAACCCCGAAAACACCGCCCCCCGTACCGCTAATTAACTAAAAATTCACCTACCGACCACAACCAATCAACAACGCGAACCCCTCCCCAAAACGAAACTAACGACCCGCCCACCCGACCTCGCATAAACGCGATAACCCTCTAACCTAAAATTACTAAAATCTAAATAAATTATAAAACCTACACGATTCTAATTCCACTAAATTCGAATCCCAACCCCGCCGATAA

Sequencing trimming

Summary

Thresholds Values
Minimum length of the trimmed sequence : 30 bp
Minimum Phred quality score : 30
Minimum ratio of primary peak : 0.75
Minimum percentage of non-mixed positions : 75 %
Sequencing Length Start position End position Mean of Phred quality scores Mean of primary peak ratio Percentage of non-mixed positions Trimmed sequence quality
#1 128 24 151 35.45 0.82 73.44 Incorrect
#2 198 25 222 48.49 0.95 93.43 Correct

Sequencing result #1

Raw sequence

Sequence

Sequence of primary peaks:

Length: 348 bp 

## TNAATTAGGGTACGTCAGTAGACGATATTGCGATATGCGAAGTCGGGTGGGCGGGTCGTTAGTTTCGTTATGGGGAGGGGTTCGCGTTGTTGATTGGTTGTGGTCGGTAGGTGAATTTTTAGTTAATTAGCGGTACGGGGGGCGGTGTTTTCGGGGTTTATTTGGTTGTAGTTACGTATTTTTTTTTAGTGGNGTCNGAATTGTAAANTATTTGTGAGTTTCCTCGACTGTGCCTACTAAGTTAATNTGANCCTAACTATCGCGCGGGNAGTTATATGANNANTCTATNTTANGATACTATCNCTCNCTTGNTTANAGNTTNNTATTTCCGTACCANCTANNATGCCC
Chromatogram

Open chromatogram file in a new tab

Table
Position A peak T peak G peak C peak Total A ratio T ratio G ratio C ratio Primary base Quality score Primary ratio
1 52 142 19 19 232 0.22 0.61 0.08 0.08 T 1 0.61
2 35 54 20 22 131 0.27 0.41 0.15 0.17 N 3 0.41
3 92 37 7 15 151 0.61 0.25 0.05 0.10 A 3 0.61
4 74 0 1 4 79 0.94 0.00 0.01 0.05 A 3 0.94
5 23 41 4 26 94 0.24 0.44 0.04 0.28 T 4 0.44
6 1 74 0 7 82 0.01 0.90 0.00 0.09 T 9 0.90
7 72 55 1 29 157 0.46 0.35 0.01 0.18 A 5 0.46
8 29 0 273 24 326 0.09 0.00 0.84 0.07 G 9 0.84
9 7 0 151 23 181 0.04 0.00 0.83 0.13 G 4 0.83
10 17 1 175 10 203 0.08 0.00 0.86 0.05 G 4 0.86
11 1 51 0 22 74 0.01 0.69 0.00 0.30 T 5 0.69
12 47 0 1 22 70 0.67 0.00 0.01 0.31 A 5 0.67
13 0 0 0 60 60 0.00 0.00 0.00 1.00 C 4 1.00
14 0 0 1401 60 1461 0.00 0.00 0.96 0.04 G 5 0.96
15 6860 13175 0 0 20035 0.34 0.66 0.00 0.00 T 4 0.66
16 0 0 0 17 17 0.00 0.00 0.00 1.00 C 5 1.00
17 3789 0 0 0 3789 1.00 0.00 0.00 0.00 A 5 1.00
18 0 0 4182 2 4184 0.00 0.00 1.00 0.00 G 27 1.00
19 0 3831 0 40 3871 0.00 0.99 0.00 0.01 T 5 0.99
20 2805 0 0 38 2843 0.99 0.00 0.00 0.01 A 4 0.99
21 0 0 1062 0 1062 0.00 0.00 1.00 0.00 G 6 1.00
22 3153 42 0 0 3195 0.99 0.01 0.00 0.00 A 16 0.99
23 0 42 0 71 113 0.00 0.37 0.00 0.63 C 9 0.63
24 0 55 2806 22 2883 0.00 0.02 0.97 0.01 G 38 0.97
25 213 0 0 25 238 0.89 0.00 0.00 0.11 A 4 0.89
26 0 1319 37 32 1388 0.00 0.95 0.03 0.02 T 5 0.95
27 1417 0 0 36 1453 0.98 0.00 0.00 0.02 A 13 0.98
28 0 1154 39 0 1193 0.00 0.97 0.03 0.00 T 10 0.97
29 0 824 0 557 1381 0.00 0.60 0.00 0.40 T 9 0.60
30 111 0 1064 0 1175 0.09 0.00 0.91 0.00 G 13 0.91
31 0 57 0 370 427 0.00 0.13 0.00 0.87 C 8 0.87
32 0 0 495 42 537 0.00 0.00 0.92 0.08 G 8 0.92
33 655 0 8 8 671 0.98 0.00 0.01 0.01 A 4 0.98
34 0 774 11 28 813 0.00 0.95 0.01 0.03 T 5 0.95
35 494 0 425 0 919 0.54 0.00 0.46 0.00 A 4 0.54
36 0 503 0 49 552 0.00 0.91 0.00 0.09 T 7 0.91
37 262 0 454 0 716 0.37 0.00 0.63 0.00 G 9 0.63
38 266 32 0 423 721 0.37 0.04 0.00 0.59 C 5 0.59
39 0 1 374 5 380 0.00 0.00 0.98 0.01 G 11 0.98
40 454 0 0 14 468 0.97 0.00 0.00 0.03 A 16 0.97
41 240 0 234 0 474 0.51 0.00 0.49 0.00 A 10 0.51
42 0 189 496 10 695 0.00 0.27 0.71 0.01 G 19 0.71
43 48 453 2 0 503 0.10 0.90 0.00 0.00 T 8 0.90
44 34 201 1 476 712 0.05 0.28 0.00 0.67 C 13 0.67
45 38 0 378 7 423 0.09 0.00 0.89 0.02 G 12 0.89
46 11 115 358 2 486 0.02 0.24 0.74 0.00 G 12 0.74
47 3 0 336 54 393 0.01 0.00 0.85 0.14 G 14 0.85
48 0 274 0 9 283 0.00 0.97 0.00 0.03 T 14 0.97
49 182 3 804 7 996 0.18 0.00 0.81 0.01 G 41 0.81
50 0 107 315 27 449 0.00 0.24 0.70 0.06 G 22 0.70
51 44 107 251 0 402 0.11 0.27 0.62 0.00 G 16 0.62
52 12 92 0 337 441 0.03 0.21 0.00 0.76 C 21 0.76
53 2 0 393 133 528 0.00 0.00 0.74 0.25 G 24 0.74
54 15 34 334 96 479 0.03 0.07 0.70 0.20 G 18 0.70
55 26 132 177 13 348 0.07 0.38 0.51 0.04 G 10 0.51
56 2 315 2 132 451 0.00 0.70 0.00 0.29 T 14 0.70
57 23 0 0 490 513 0.04 0.00 0.00 0.96 C 31 0.96
58 103 36 284 2 425 0.24 0.08 0.67 0.00 G 14 0.67
59 32 295 1 91 419 0.08 0.70 0.00 0.22 T 16 0.70
60 0 512 13 30 555 0.00 0.92 0.02 0.05 T 22 0.92
61 366 27 228 29 650 0.56 0.04 0.35 0.04 A 22 0.56
62 13 61 234 52 360 0.04 0.17 0.65 0.14 G 10 0.65
63 14 306 136 0 456 0.03 0.67 0.30 0.00 T 15 0.67
64 0 431 0 114 545 0.00 0.79 0.00 0.21 T 22 0.79
65 0 347 8 0 355 0.00 0.98 0.02 0.00 T 23 0.98
66 36 82 2 478 598 0.06 0.14 0.00 0.80 C 38 0.80
67 25 0 245 12 282 0.09 0.00 0.87 0.04 G 12 0.87
68 28 291 0 141 460 0.06 0.63 0.00 0.31 T 10 0.63
69 55 497 0 21 573 0.10 0.87 0.00 0.04 T 13 0.87
70 506 387 8 5 906 0.56 0.43 0.01 0.01 A 10 0.56
71 170 378 4 2 554 0.31 0.68 0.01 0.00 T 11 0.68
72 0 3 547 28 578 0.00 0.01 0.95 0.05 G 15 0.95
73 255 13 289 0 557 0.46 0.02 0.52 0.00 G 13 0.52
74 21 7 296 67 391 0.05 0.02 0.76 0.17 G 13 0.76
75 31 7 314 43 395 0.08 0.02 0.79 0.11 G 19 0.79
76 577 29 0 4 610 0.95 0.05 0.00 0.01 A 59 0.95
77 12 2 326 6 346 0.03 0.01 0.94 0.02 G 39 0.94
78 64 1 458 0 523 0.12 0.00 0.88 0.00 G 56 0.88
79 15 26 368 0 409 0.04 0.06 0.90 0.00 G 29 0.90
80 0 58 384 0 442 0.00 0.13 0.87 0.00 G 39 0.87
81 7 407 3 0 417 0.02 0.98 0.01 0.00 T 24 0.98
82 9 436 1 0 446 0.02 0.98 0.00 0.00 T 30 0.98
83 15 23 1 700 739 0.02 0.03 0.00 0.95 C 39 0.95
84 18 32 299 224 573 0.03 0.06 0.52 0.39 G 18 0.52
85 32 0 40 456 528 0.06 0.00 0.08 0.86 C 21 0.86
86 53 115 467 93 728 0.07 0.16 0.64 0.13 G 28 0.64
87 87 424 20 35 566 0.15 0.75 0.04 0.06 T 36 0.75
88 0 432 0 35 467 0.00 0.93 0.00 0.07 T 36 0.93
89 98 46 461 37 642 0.15 0.07 0.72 0.06 G 40 0.72
90 0 270 61 12 343 0.00 0.79 0.18 0.03 T 34 0.79
91 59 411 41 32 543 0.11 0.76 0.08 0.06 T 48 0.76
92 39 45 438 3 525 0.07 0.09 0.83 0.01 G 59 0.83
93 494 25 0 51 570 0.87 0.04 0.00 0.09 A 59 0.87
94 26 338 38 0 402 0.06 0.84 0.09 0.00 T 59 0.84
95 30 436 23 23 512 0.06 0.85 0.04 0.04 T 56 0.85
96 8 27 697 0 732 0.01 0.04 0.95 0.00 G 62 0.95
97 19 13 246 15 293 0.06 0.04 0.84 0.05 G 59 0.84
98 28 245 17 14 304 0.09 0.81 0.06 0.05 T 50 0.81
99 0 415 4 25 444 0.00 0.93 0.01 0.06 T 56 0.93
100 34 8 527 1 570 0.06 0.01 0.92 0.00 G 54 0.92
101 58 264 10 23 355 0.16 0.74 0.03 0.06 T 50 0.74
102 0 7 534 19 560 0.00 0.01 0.95 0.03 G 62 0.95
103 19 28 313 8 368 0.05 0.08 0.85 0.02 G 43 0.85
104 38 275 4 5 322 0.12 0.85 0.01 0.02 T 59 0.85
105 11 4 0 454 469 0.02 0.01 0.00 0.97 C 59 0.97
106 5 38 279 17 339 0.01 0.11 0.82 0.05 G 54 0.82
107 0 0 315 14 329 0.00 0.00 0.96 0.04 G 42 0.96
108 27 217 2 0 246 0.11 0.88 0.01 0.00 T 59 0.88
109 381 3 0 28 412 0.92 0.01 0.00 0.07 A 62 0.92
110 21 1 206 18 246 0.09 0.00 0.84 0.07 G 43 0.84
111 10 1 389 0 400 0.03 0.00 0.97 0.00 G 59 0.97
112 17 256 8 65 346 0.05 0.74 0.02 0.19 T 46 0.74
113 2 9 460 0 471 0.00 0.02 0.98 0.00 G 56 0.98
114 439 29 18 28 514 0.85 0.06 0.04 0.05 A 54 0.85
115 348 0 33 0 381 0.91 0.00 0.09 0.00 A 56 0.91
116 0 333 9 48 390 0.00 0.85 0.02 0.12 T 59 0.85
117 31 527 19 20 597 0.05 0.88 0.03 0.03 T 62 0.88
118 35 372 11 0 418 0.08 0.89 0.03 0.00 T 59 0.89
119 44 342 0 56 442 0.10 0.77 0.00 0.13 T 59 0.77
120 0 332 9 6 347 0.00 0.96 0.03 0.02 T 59 0.96
121 414 5 12 26 457 0.91 0.01 0.03 0.06 A 54 0.91
122 53 9 171 27 260 0.20 0.03 0.66 0.10 G 34 0.66
123 23 257 10 0 290 0.08 0.89 0.03 0.00 T 49 0.89
124 14 352 1 24 391 0.04 0.90 0.00 0.06 T 49 0.90
125 302 7 24 68 401 0.75 0.02 0.06 0.17 A 50 0.75
126 294 4 7 0 305 0.96 0.01 0.02 0.00 A 50 0.96
127 17 270 0 64 351 0.05 0.77 0.00 0.18 T 46 0.77
128 47 387 20 37 491 0.10 0.79 0.04 0.08 T 46 0.79
129 387 24 12 15 438 0.88 0.05 0.03 0.03 A 54 0.88
130 33 28 118 47 226 0.15 0.12 0.52 0.21 G 23 0.52
131 33 28 21 229 311 0.11 0.09 0.07 0.74 C 48 0.74
132 19 45 312 28 404 0.05 0.11 0.77 0.07 G 56 0.77
133 0 46 245 0 291 0.00 0.16 0.84 0.00 G 56 0.84
134 29 232 4 45 310 0.09 0.75 0.01 0.15 T 49 0.75
135 303 46 14 8 371 0.82 0.12 0.04 0.02 A 59 0.82
136 37 38 7 264 346 0.11 0.11 0.02 0.76 C 59 0.76
137 34 1 238 18 291 0.12 0.00 0.82 0.06 G 50 0.82
138 14 0 364 38 416 0.03 0.00 0.88 0.09 G 59 0.88
139 2 43 231 49 325 0.01 0.13 0.71 0.15 G 51 0.71
140 10 34 291 0 335 0.03 0.10 0.87 0.00 G 59 0.87
141 24 24 296 10 354 0.07 0.07 0.84 0.03 G 59 0.84
142 38 17 278 45 378 0.10 0.04 0.74 0.12 G 56 0.74
143 45 0 11 226 282 0.16 0.00 0.04 0.80 C 51 0.80
144 21 33 322 6 382 0.05 0.09 0.84 0.02 G 59 0.84
145 0 4 269 54 327 0.00 0.01 0.82 0.17 G 56 0.82
146 41 184 8 1 234 0.18 0.79 0.03 0.00 T 49 0.79
147 0 16 486 1 503 0.00 0.03 0.97 0.00 G 59 0.97
148 7 266 12 4 289 0.02 0.92 0.04 0.01 T 59 0.92
149 15 350 5 25 395 0.04 0.89 0.01 0.06 T 50 0.89
150 49 271 13 36 369 0.13 0.73 0.04 0.10 T 46 0.73
151 36 304 10 6 356 0.10 0.85 0.03 0.02 T 34 0.85
152 76 71 30 271 448 0.17 0.16 0.07 0.60 C 21 0.60
153 87 109 246 39 481 0.18 0.23 0.51 0.08 G 13 0.51
154 163 99 464 45 771 0.21 0.13 0.60 0.06 G 26 0.60
155 211 110 431 55 807 0.26 0.14 0.53 0.07 G 25 0.53
156 0 0 451 0 451 0.00 0.00 1.00 0.00 G 26 1.00
157 92 232 76 53 453 0.20 0.51 0.17 0.12 T 24 0.51
158 0 279 0 18 297 0.00 0.94 0.00 0.06 T 28 0.94
159 25 251 28 0 304 0.08 0.83 0.09 0.00 T 34 0.83
160 355 6 0 53 414 0.86 0.01 0.00 0.13 A 56 0.86
161 7 230 23 60 320 0.02 0.72 0.07 0.19 T 51 0.72
162 36 271 26 10 343 0.10 0.79 0.08 0.03 T 50 0.79
163 0 273 31 4 308 0.00 0.89 0.10 0.01 T 48 0.89
164 92 6 330 0 428 0.21 0.01 0.77 0.00 G 32 0.77
165 5 5 221 11 242 0.02 0.02 0.91 0.05 G 28 0.91
166 41 180 0 20 241 0.17 0.75 0.00 0.08 T 36 0.75
167 16 277 60 47 400 0.04 0.69 0.15 0.12 T 59 0.69
168 2 7 342 23 374 0.01 0.02 0.91 0.06 G 50 0.91
169 23 155 19 67 264 0.09 0.59 0.07 0.25 T 39 0.59
170 216 24 19 7 266 0.81 0.09 0.07 0.03 A 43 0.81
171 42 26 98 1 167 0.25 0.16 0.59 0.01 G 18 0.59
172 22 174 19 30 245 0.09 0.71 0.08 0.12 T 28 0.71
173 14 261 9 2 286 0.05 0.91 0.03 0.01 T 46 0.91
174 197 21 30 0 248 0.79 0.08 0.12 0.00 A 34 0.79
175 47 53 2 215 317 0.15 0.17 0.01 0.68 C 31 0.68
176 27 31 124 27 209 0.13 0.15 0.59 0.13 G 18 0.59
177 52 188 18 1 259 0.20 0.73 0.07 0.00 T 31 0.73
178 210 4 34 1 249 0.84 0.02 0.14 0.00 A 35 0.84
179 65 213 0 12 290 0.22 0.73 0.00 0.04 T 49 0.73
180 0 281 5 5 291 0.00 0.97 0.02 0.02 T 48 0.97
181 42 254 11 8 315 0.13 0.81 0.03 0.03 T 43 0.81
182 12 241 20 35 308 0.04 0.78 0.06 0.11 T 59 0.78
183 52 236 0 22 310 0.17 0.76 0.00 0.07 T 59 0.76
184 13 250 13 2 278 0.05 0.90 0.05 0.01 T 59 0.90
185 21 242 14 44 321 0.07 0.75 0.04 0.14 T 59 0.75
186 11 216 46 18 291 0.04 0.74 0.16 0.06 T 51 0.74
187 0 180 7 1 188 0.00 0.96 0.04 0.01 T 49 0.96
188 178 6 19 13 216 0.82 0.03 0.09 0.06 A 38 0.82
189 29 41 65 3 138 0.21 0.30 0.47 0.02 G 13 0.47
190 19 112 43 1 175 0.11 0.64 0.25 0.01 T 25 0.64
191 40 2 246 16 304 0.13 0.01 0.81 0.05 G 32 0.81
192 0 35 97 18 150 0.00 0.23 0.65 0.12 G 20 0.65
193 49 35 31 94 209 0.23 0.17 0.15 0.45 N 19 0.45
194 41 11 107 20 179 0.23 0.06 0.60 0.11 G 19 0.60
195 6 128 28 67 229 0.03 0.56 0.12 0.29 T 27 0.56
196 2 5 21 174 202 0.01 0.02 0.10 0.86 C 34 0.86
197 29 36 87 43 195 0.15 0.18 0.45 0.22 N 13 0.45
198 45 1 137 64 247 0.18 0.00 0.55 0.26 G 27 0.55
199 241 30 5 7 283 0.85 0.11 0.02 0.02 A 31 0.85
200 119 15 13 61 208 0.57 0.07 0.06 0.29 A 23 0.57
201 46 146 7 56 255 0.18 0.57 0.03 0.22 T 34 0.57
202 0 185 40 0 225 0.00 0.82 0.18 0.00 T 38 0.82
203 57 36 181 6 280 0.20 0.13 0.65 0.02 G 34 0.65
204 52 114 11 0 177 0.29 0.64 0.06 0.00 T 27 0.64
205 162 37 0 13 212 0.76 0.17 0.00 0.06 A 34 0.76
206 122 55 7 9 193 0.63 0.28 0.04 0.05 A 27 0.63
207 163 43 24 1 231 0.71 0.19 0.10 0.00 A 34 0.71
208 29 47 102 32 210 0.14 0.22 0.49 0.15 N 18 0.49
209 71 83 7 1 162 0.44 0.51 0.04 0.01 T 13 0.51
210 167 37 0 35 239 0.70 0.15 0.00 0.15 A 30 0.70
211 22 158 49 18 247 0.09 0.64 0.20 0.07 T 34 0.64
212 19 157 11 46 233 0.08 0.67 0.05 0.20 T 34 0.67
213 42 163 26 0 231 0.18 0.71 0.11 0.00 T 30 0.71
214 80 18 168 8 274 0.29 0.07 0.61 0.03 G 34 0.61
215 10 82 44 67 203 0.05 0.40 0.22 0.33 T 19 0.40
216 17 32 147 39 235 0.07 0.14 0.63 0.17 G 18 0.63
217 182 0 27 55 264 0.69 0.00 0.10 0.21 A 30 0.69
218 15 92 96 2 205 0.07 0.45 0.47 0.01 G 12 0.47
219 14 184 18 18 234 0.06 0.79 0.08 0.08 T 27 0.79
220 8 171 6 25 210 0.04 0.81 0.03 0.12 T 27 0.81
221 12 136 4 31 183 0.07 0.74 0.02 0.17 T 28 0.74
222 45 4 6 155 210 0.21 0.02 0.03 0.74 C 27 0.74
223 10 52 7 121 190 0.05 0.27 0.04 0.64 C 23 0.64
224 20 102 49 42 213 0.09 0.48 0.23 0.20 T 23 0.48
225 11 2 25 210 248 0.04 0.01 0.10 0.85 C 43 0.85
226 27 5 93 10 135 0.20 0.04 0.69 0.07 G 18 0.69
227 128 49 31 22 230 0.56 0.21 0.13 0.10 A 22 0.56
228 21 55 27 112 215 0.10 0.26 0.13 0.52 C 22 0.52
229 4 130 47 57 238 0.02 0.55 0.20 0.24 T 27 0.55
230 22 49 294 0 365 0.06 0.13 0.81 0.00 G 44 0.81
231 29 143 40 17 229 0.13 0.62 0.17 0.07 T 33 0.62
232 17 58 160 22 257 0.07 0.23 0.62 0.09 G 27 0.62
233 9 29 10 198 246 0.04 0.12 0.04 0.80 C 12 0.80
234 0 58 26 114 198 0.00 0.29 0.13 0.58 C 10 0.58
235 72 123 44 29 268 0.27 0.46 0.16 0.11 T 10 0.46
236 192 172 0 41 405 0.47 0.42 0.00 0.10 A 13 0.47
237 58 33 21 164 276 0.21 0.12 0.08 0.59 C 10 0.59
238 75 125 15 3 218 0.34 0.57 0.07 0.01 T 9 0.57
239 340 21 15 17 393 0.87 0.05 0.04 0.04 A 44 0.87
240 190 0 0 14 204 0.93 0.00 0.00 0.07 A 23 0.93
241 9 1 17 0 27 0.33 0.04 0.63 0.00 G 5 0.63
242 11 51 16 21 99 0.11 0.52 0.16 0.21 T 12 0.52
243 33 41 20 0 94 0.35 0.44 0.21 0.00 T 10 0.44
244 173 35 20 10 238 0.73 0.15 0.08 0.04 A 38 0.73
245 67 1 9 47 124 0.54 0.01 0.07 0.38 A 18 0.54
246 25 52 0 8 85 0.29 0.61 0.00 0.09 T 20 0.61
247 29 39 23 14 105 0.28 0.37 0.22 0.13 N 24 0.37
248 34 40 0 16 90 0.38 0.44 0.00 0.18 T 17 0.44
249 1 1 26 12 40 0.03 0.03 0.65 0.30 G 13 0.65
250 32 22 16 0 70 0.46 0.31 0.23 0.00 A 9 0.46
251 11 13 18 9 51 0.22 0.25 0.35 0.18 N 8 0.35
252 11 17 6 25 59 0.19 0.29 0.10 0.42 C 6 0.42
253 9 4 25 25 63 0.14 0.06 0.40 0.40 C 12 0.40
254 0 14 13 13 40 0.00 0.35 0.32 0.32 T 10 0.35
255 38 0 8 13 59 0.64 0.00 0.14 0.22 A 13 0.64
256 36 2 10 28 76 0.47 0.03 0.13 0.37 A 10 0.47
257 13 0 19 21 53 0.25 0.00 0.36 0.40 C 5 0.40
258 27 60 0 7 94 0.29 0.64 0.00 0.07 T 11 0.64
259 48 0 23 30 101 0.48 0.00 0.23 0.30 A 11 0.48
260 46 50 10 16 122 0.38 0.41 0.08 0.13 T 13 0.41
261 32 0 0 36 68 0.47 0.00 0.00 0.53 C 11 0.53
262 0 0 41 33 74 0.00 0.00 0.55 0.45 G 8 0.55
263 23 36 0 56 115 0.20 0.31 0.00 0.49 C 11 0.49
264 0 30 31 0 61 0.00 0.49 0.51 0.00 G 10 0.51
265 43 4 15 82 144 0.30 0.03 0.10 0.57 C 27 0.57
266 25 16 27 0 68 0.37 0.24 0.40 0.00 G 12 0.40
267 23 0 25 19 67 0.34 0.00 0.37 0.28 G 10 0.37
268 26 14 29 0 69 0.38 0.20 0.42 0.00 G 16 0.42
269 24 30 12 9 75 0.32 0.40 0.16 0.12 N 10 0.40
270 33 0 22 18 73 0.45 0.00 0.30 0.25 A 10 0.45
271 5 15 22 19 61 0.08 0.25 0.36 0.31 G 9 0.36
272 15 24 9 0 48 0.31 0.50 0.19 0.00 T 9 0.50
273 20 47 12 5 84 0.24 0.56 0.14 0.06 T 13 0.56
274 46 42 1 2 91 0.51 0.46 0.01 0.02 A 13 0.51
275 33 35 26 5 99 0.33 0.35 0.26 0.05 T 9 0.35
276 50 0 10 40 100 0.50 0.00 0.10 0.40 A 13 0.50
277 36 48 26 7 117 0.31 0.41 0.22 0.06 T 11 0.41
278 38 14 57 10 119 0.32 0.12 0.48 0.08 G 9 0.48
279 79 9 50 0 138 0.57 0.07 0.36 0.00 A 18 0.57
280 68 30 53 35 186 0.37 0.16 0.28 0.19 N 8 0.37
281 54 24 70 52 200 0.27 0.12 0.35 0.26 N 13 0.35
282 67 27 58 11 163 0.41 0.17 0.36 0.07 A 16 0.41
283 37 21 38 23 119 0.31 0.18 0.32 0.19 N 12 0.32
284 24 32 27 5 88 0.27 0.36 0.31 0.06 T 9 0.36
285 0 13 22 44 79 0.00 0.16 0.28 0.56 C 12 0.56
286 8 39 17 17 81 0.10 0.48 0.21 0.21 T 16 0.48
287 29 7 9 12 57 0.51 0.12 0.16 0.21 A 10 0.51
288 7 36 8 0 51 0.14 0.71 0.16 0.00 T 18 0.71
289 9 26 10 11 56 0.16 0.46 0.18 0.20 N 12 0.46
290 10 72 8 3 93 0.11 0.77 0.09 0.03 T 27 0.77
291 11 63 12 0 86 0.13 0.73 0.14 0.00 T 34 0.73
292 50 1 25 0 76 0.66 0.01 0.33 0.00 A 27 0.66
293 17 20 15 25 77 0.22 0.26 0.19 0.32 N 11 0.32
294 0 3 19 11 33 0.00 0.09 0.58 0.33 G 6 0.58
295 27 0 25 0 52 0.52 0.00 0.48 0.00 A 18 0.52
296 10 49 25 14 98 0.10 0.50 0.26 0.14 T 28 0.50
297 30 10 22 1 63 0.48 0.16 0.35 0.02 A 10 0.48
298 14 0 19 25 58 0.24 0.00 0.33 0.43 C 13 0.43
299 16 25 1 17 59 0.27 0.42 0.02 0.29 T 10 0.42
300 29 0 3 0 32 0.91 0.00 0.09 0.00 A 13 0.91
301 18 47 10 0 75 0.24 0.63 0.13 0.00 T 23 0.63
302 27 0 1 42 70 0.39 0.00 0.01 0.60 C 17 0.60
303 23 18 11 39 91 0.25 0.20 0.12 0.43 N 27 0.43
304 4 18 4 37 63 0.06 0.29 0.06 0.59 C 15 0.59
305 0 50 6 0 56 0.00 0.89 0.11 0.00 T 23 0.89
306 9 0 14 17 40 0.22 0.00 0.35 0.42 C 8 0.42
307 27 25 8 9 69 0.39 0.36 0.12 0.13 N 11 0.39
308 0 0 11 32 43 0.00 0.00 0.26 0.74 C 13 0.74
309 27 60 0 32 119 0.23 0.50 0.00 0.27 T 18 0.50
310 35 45 12 9 101 0.35 0.45 0.12 0.09 T 13 0.45
311 0 0 35 10 45 0.00 0.00 0.78 0.22 G 12 0.78
312 34 23 9 18 84 0.40 0.27 0.11 0.21 N 11 0.40
313 16 45 6 0 67 0.24 0.67 0.09 0.00 T 13 0.67
314 25 36 6 16 83 0.30 0.43 0.07 0.19 T 13 0.43
315 35 0 14 16 65 0.54 0.00 0.22 0.25 A 11 0.54
316 29 11 16 11 67 0.43 0.16 0.24 0.16 N 13 0.43
317 42 17 4 18 81 0.52 0.21 0.05 0.22 A 23 0.52
318 0 0 17 9 26 0.00 0.00 0.65 0.35 G 19 0.65
319 24 32 17 15 88 0.27 0.36 0.19 0.17 N 11 0.36
320 10 56 8 12 86 0.12 0.65 0.09 0.14 T 19 0.65
321 0 56 0 22 78 0.00 0.72 0.00 0.28 T 18 0.72
322 35 26 14 22 97 0.36 0.27 0.14 0.23 N 8 0.36
323 7 6 6 19 38 0.18 0.16 0.16 0.50 N 8 0.50
324 4 31 17 7 59 0.07 0.53 0.29 0.12 T 9 0.53
325 20 0 14 0 34 0.59 0.00 0.41 0.00 A 5 0.59
326 36 38 20 4 98 0.37 0.39 0.20 0.04 T 11 0.39
327 18 30 1 14 63 0.29 0.48 0.02 0.22 T 10 0.48
328 24 40 18 7 89 0.27 0.45 0.20 0.08 T 9 0.45
329 0 1 10 40 51 0.00 0.02 0.20 0.78 C 13 0.78
330 7 12 8 43 70 0.10 0.17 0.11 0.61 C 10 0.61
331 18 1 27 18 64 0.28 0.02 0.42 0.28 G 11 0.42
332 0 53 6 10 69 0.00 0.77 0.09 0.14 T 34 0.77
333 25 5 25 23 78 0.32 0.06 0.32 0.29 A 12 0.32
334 6 0 11 29 46 0.13 0.00 0.24 0.63 C 10 0.63
335 16 0 11 28 55 0.29 0.00 0.20 0.51 C 11 0.51
336 35 26 0 10 71 0.49 0.37 0.00 0.14 A 13 0.49
337 15 21 25 10 71 0.21 0.30 0.35 0.14 N 9 0.35
338 25 0 17 28 70 0.36 0.00 0.24 0.40 C 10 0.40
339 10 17 12 0 39 0.26 0.44 0.31 0.00 T 9 0.44
340 28 17 21 3 69 0.41 0.25 0.30 0.04 A 11 0.41
341 21 42 11 42 116 0.18 0.36 0.09 0.36 N 10 0.36
342 17 34 11 20 82 0.21 0.41 0.13 0.24 N 10 0.41
343 34 0 14 24 72 0.47 0.00 0.19 0.33 A 11 0.47
344 14 53 6 26 99 0.14 0.54 0.06 0.26 T 13 0.54
345 25 1 28 21 75 0.33 0.01 0.37 0.28 G 9 0.37
346 29 34 5 35 103 0.28 0.33 0.05 0.34 C 13 0.34
347 25 0 4 48 77 0.32 0.00 0.05 0.62 C 11 0.62
348 0 0 8 32 40 0.00 0.00 0.20 0.80 C 10 0.80

Quality report

Trimming thresholds :

  • Trimming Method : M1
  • Minimum base error probability : 0.001 %
  • Minimum Phred quality score : 30
Raw sequence information Values
Raw sequence length : 348 bp
Mean of raw sequence Phred quality scores : 25.51
Quality report - Trimmed sequence information Values
Trimmed sequence length : 127 bp
Trimmed sequence start position : 24
Trimmed sequence end position : 151
Mean of trimmed sequence Phred quality scores : 35.43

Mixed base peak report

Trimming thresholds :

  • Minimum primary peak ratio for a position to be considered non-mixed : 0.75
  • Minimum of non-mixed positions percentage in the trimmed sequence to be considered non-mixed : 75 %
  • Minimum number of consecutive non-mixed positions at extremities to get a non-mixed positions percentage above threshold for the trimmed sequence (computed) : 3 bp
Raw sequence information Values
Raw sequence length : 348 bp
Mean of raw sequence primary peak ratios : 0.69
Percentage of non-mixed positions on raw sequence : 42.82 %
Mixed peak report - Trimmed sequence information Values
Trimmed sequence length : 178 bp
Trimmed sequence start position : 8
Trimmed sequence end position : 185
Mean of trimmed sequence primary peak ratios : 0.81
Percentage of non-mixed positions on trimmed sequence : 70.79 %

Trimming plot

Final trimmed sequence

Sequence

Warning: Trimmed sequence from the sequencing result #1 was found with insufficient length or insufficient quality and will not be used.

Final trimmed sequence information Values
Length : 128 bp
Start position : 24
End position : 151
Mean of Phred quality scores : 35.45
Mean of primary peak ratio : 0.82
Percentage of non-mixed positions : 73.44 %
Chromatogram
Table

Sequencing result #2

Raw sequence

Sequence

Sequence of primary peaks:

Length: 228 bp 

## CCAAATAAATTCCATAGCCCTCTAACCTTAATTACTATCCCTCTTATAGAGGGTTAATTACCGCCCCCCGTACCGCTAATTAACTAAAAATTCACCTACCGACCACAACCAATCAACAACGCGAACCCCTCCCCAAAACGAAACTAACGACCCGCCCACCCGACCTCGCATAAACGCGATAACCCTCTAACCTAAAATTACTAAACCCTTTAGTGAGGGTTAATTAAA
Chromatogram

Open chromatogram file in a new tab

Table
Position A peak T peak G peak C peak Total A ratio T ratio G ratio C ratio Primary base Quality score Primary ratio
1 0 0 0 4 4 0.00 0.00 0.00 1.00 C 16 1.00
2 0 0 0 944 944 0.00 0.00 0.00 1.00 C 12 1.00
3 2114 0 0 1742 3856 0.55 0.00 0.00 0.45 A 11 0.55
4 1913 796 0 639 3348 0.57 0.24 0.00 0.19 A 2 0.57
5 950 0 0 0 950 1.00 0.00 0.00 0.00 A 17 1.00
6 0 1596 0 2 1598 0.00 1.00 0.00 0.00 T 8 1.00
7 2128 1296 0 0 3424 0.62 0.38 0.00 0.00 A 8 0.62
8 2118 0 0 499 2617 0.81 0.00 0.00 0.19 A 11 0.81
9 1814 0 0 0 1814 1.00 0.00 0.00 0.00 A 24 1.00
10 1 1119 0 0 1120 0.00 1.00 0.00 0.00 T 24 1.00
11 0 1687 0 0 1687 0.00 1.00 0.00 0.00 T 24 1.00
12 0 0 0 1583 1583 0.00 0.00 0.00 1.00 C 25 1.00
13 0 0 0 1121 1121 0.00 0.00 0.00 1.00 C 20 1.00
14 1135 0 265 1 1401 0.81 0.00 0.19 0.00 A 16 0.81
15 0 314 2 1 317 0.00 0.99 0.01 0.00 T 19 0.99
16 908 0 0 318 1226 0.74 0.00 0.00 0.26 A 8 0.74
17 0 0 378 0 378 0.00 0.00 1.00 0.00 G 8 1.00
18 1 0 0 1525 1526 0.00 0.00 0.00 1.00 C 15 1.00
19 0 0 0 1407 1407 0.00 0.00 0.00 1.00 C 23 1.00
20 0 0 0 1133 1133 0.00 0.00 0.00 1.00 C 29 1.00
21 0 1113 0 0 1113 0.00 1.00 0.00 0.00 T 30 1.00
22 499 0 0 952 1451 0.34 0.00 0.00 0.66 C 15 0.66
23 0 513 0 1 514 0.00 1.00 0.00 0.00 T 25 1.00
24 1416 1 0 0 1417 1.00 0.00 0.00 0.00 A 28 1.00
25 1075 0 0 0 1075 1.00 0.00 0.00 0.00 A 46 1.00
26 0 0 0 575 575 0.00 0.00 0.00 1.00 C 41 1.00
27 186 0 0 710 896 0.21 0.00 0.00 0.79 C 40 0.79
28 0 516 0 1 517 0.00 1.00 0.00 0.00 T 40 1.00
29 0 226 0 0 226 0.00 1.00 0.00 0.00 T 10 1.00
30 902 0 0 0 902 1.00 0.00 0.00 0.00 A 18 1.00
31 922 0 0 173 1095 0.84 0.00 0.00 0.16 A 45 0.84
32 0 648 0 0 648 0.00 1.00 0.00 0.00 T 48 1.00
33 0 1064 171 0 1235 0.00 0.86 0.14 0.00 T 49 0.86
34 1135 0 0 1 1136 1.00 0.00 0.00 0.00 A 49 1.00
35 0 1 0 666 667 0.00 0.00 0.00 1.00 C 44 1.00
36 0 519 0 0 519 0.00 1.00 0.00 0.00 T 25 1.00
37 781 0 0 352 1133 0.69 0.00 0.00 0.31 A 8 0.69
38 0 441 0 0 441 0.00 1.00 0.00 0.00 T 8 1.00
39 2 0 0 1264 1266 0.00 0.00 0.00 1.00 C 45 1.00
40 212 0 0 677 889 0.24 0.00 0.00 0.76 C 20 0.76
41 0 1 0 832 833 0.00 0.00 0.00 1.00 C 20 1.00
42 0 805 0 0 805 0.00 1.00 0.00 0.00 T 44 1.00
43 0 0 0 236 236 0.00 0.00 0.00 1.00 C 27 1.00
44 259 1197 0 0 1456 0.18 0.82 0.00 0.00 T 29 0.82
45 592 816 0 0 1408 0.42 0.58 0.00 0.00 T 24 0.58
46 1487 0 0 0 1487 1.00 0.00 0.00 0.00 A 25 1.00
47 0 390 336 0 726 0.00 0.54 0.46 0.00 T 6 0.54
48 594 558 2 0 1154 0.51 0.48 0.00 0.00 A 6 0.51
49 214 2 652 0 868 0.25 0.00 0.75 0.00 G 20 0.75
50 1051 0 0 0 1051 1.00 0.00 0.00 0.00 A 25 1.00
51 2 0 1060 676 1738 0.00 0.00 0.61 0.39 G 10 0.61
52 0 0 1385 413 1798 0.00 0.00 0.77 0.23 G 15 0.77
53 0 1 868 537 1406 0.00 0.00 0.62 0.38 G 11 0.62
54 0 742 0 540 1282 0.00 0.58 0.00 0.42 T 16 0.58
55 0 706 524 0 1230 0.00 0.57 0.43 0.00 T 16 0.57
56 1458 0 0 0 1458 1.00 0.00 0.00 0.00 A 30 1.00
57 1264 0 0 0 1264 1.00 0.00 0.00 0.00 A 36 1.00
58 358 895 0 0 1253 0.29 0.71 0.00 0.00 T 37 0.71
59 0 2461 0 3 2464 0.00 1.00 0.00 0.00 T 16 1.00
60 3929 6 0 376 4311 0.91 0.00 0.00 0.09 A 17 0.91
61 87 0 0 464 551 0.16 0.00 0.00 0.84 C 25 0.84
62 0 0 0 545 545 0.00 0.00 0.00 1.00 C 30 1.00
63 0 0 594 13 607 0.00 0.00 0.98 0.02 G 51 0.98
64 0 0 0 675 675 0.00 0.00 0.00 1.00 C 52 1.00
65 0 0 0 850 850 0.00 0.00 0.00 1.00 C 54 1.00
66 0 0 0 777 777 0.00 0.00 0.00 1.00 C 55 1.00
67 0 0 0 889 889 0.00 0.00 0.00 1.00 C 61 1.00
68 0 0 0 776 776 0.00 0.00 0.00 1.00 C 61 1.00
69 0 0 0 686 686 0.00 0.00 0.00 1.00 C 58 1.00
70 0 0 687 0 687 0.00 0.00 1.00 0.00 G 58 1.00
71 0 389 0 0 389 0.00 1.00 0.00 0.00 T 28 1.00
72 735 0 0 0 735 1.00 0.00 0.00 0.00 A 51 1.00
73 1 0 0 771 772 0.00 0.00 0.00 1.00 C 51 1.00
74 0 0 0 708 708 0.00 0.00 0.00 1.00 C 58 1.00
75 0 0 751 31 782 0.00 0.00 0.96 0.04 G 58 0.96
76 0 0 1 550 551 0.00 0.00 0.00 1.00 C 58 1.00
77 0 561 0 0 561 0.00 1.00 0.00 0.00 T 58 1.00
78 666 0 0 0 666 1.00 0.00 0.00 0.00 A 58 1.00
79 709 0 0 0 709 1.00 0.00 0.00 0.00 A 58 1.00
80 1 547 0 0 548 0.00 1.00 0.00 0.00 T 58 1.00
81 0 826 0 0 826 0.00 1.00 0.00 0.00 T 58 1.00
82 811 0 0 0 811 1.00 0.00 0.00 0.00 A 58 1.00
83 478 0 0 0 478 1.00 0.00 0.00 0.00 A 58 1.00
84 1 0 0 471 472 0.00 0.00 0.00 1.00 C 58 1.00
85 0 542 0 0 542 0.00 1.00 0.00 0.00 T 58 1.00
86 771 1 0 0 772 1.00 0.00 0.00 0.00 A 61 1.00
87 543 0 0 0 543 1.00 0.00 0.00 0.00 A 58 1.00
88 510 0 0 0 510 1.00 0.00 0.00 0.00 A 58 1.00
89 682 0 0 0 682 1.00 0.00 0.00 0.00 A 51 1.00
90 557 0 0 0 557 1.00 0.00 0.00 0.00 A 51 1.00
91 1 655 0 0 656 0.00 1.00 0.00 0.00 T 51 1.00
92 0 858 0 2 860 0.00 1.00 0.00 0.00 T 51 1.00
93 1 0 0 725 726 0.00 0.00 0.00 1.00 C 51 1.00
94 372 0 0 22 394 0.94 0.00 0.00 0.06 A 51 0.94
95 0 0 0 612 612 0.00 0.00 0.00 1.00 C 51 1.00
96 0 2 0 688 690 0.00 0.00 0.00 1.00 C 58 1.00
97 0 615 0 2 617 0.00 1.00 0.00 0.00 T 58 1.00
98 885 0 0 2 887 1.00 0.00 0.00 0.00 A 58 1.00
99 0 0 0 635 635 0.00 0.00 0.00 1.00 C 58 1.00
100 0 0 0 594 594 0.00 0.00 0.00 1.00 C 58 1.00
101 2 0 743 2 747 0.00 0.00 0.99 0.00 G 41 0.99
102 906 0 2 2 910 1.00 0.00 0.00 0.00 A 51 1.00
103 1 0 0 666 667 0.00 0.00 0.00 1.00 C 51 1.00
104 1 0 0 600 601 0.00 0.00 0.00 1.00 C 51 1.00
105 507 0 0 0 507 1.00 0.00 0.00 0.00 A 58 1.00
106 2 0 0 528 530 0.00 0.00 0.00 1.00 C 61 1.00
107 476 0 0 2 478 1.00 0.00 0.00 0.00 A 58 1.00
108 518 0 0 2 520 1.00 0.00 0.00 0.00 A 58 1.00
109 2 0 0 589 591 0.00 0.00 0.00 1.00 C 58 1.00
110 0 0 0 612 612 0.00 0.00 0.00 1.00 C 58 1.00
111 549 0 0 0 549 1.00 0.00 0.00 0.00 A 58 1.00
112 563 2 0 0 565 1.00 0.00 0.00 0.00 A 58 1.00
113 0 493 0 0 493 0.00 1.00 0.00 0.00 T 58 1.00
114 0 2 0 827 829 0.00 0.00 0.00 1.00 C 58 1.00
115 496 0 0 0 496 1.00 0.00 0.00 0.00 A 58 1.00
116 461 0 0 0 461 1.00 0.00 0.00 0.00 A 58 1.00
117 4 0 0 487 491 0.01 0.00 0.00 0.99 C 58 0.99
118 552 0 0 2 554 1.00 0.00 0.00 0.00 A 58 1.00
119 498 0 0 0 498 1.00 0.00 0.00 0.00 A 58 1.00
120 2 0 0 578 580 0.00 0.00 0.00 1.00 C 51 1.00
121 0 0 604 7 611 0.00 0.00 0.99 0.01 G 51 0.99
122 0 0 18 641 659 0.00 0.00 0.03 0.97 C 58 0.97
123 7 0 477 0 484 0.01 0.00 0.99 0.00 G 51 0.99
124 688 0 0 0 688 1.00 0.00 0.00 0.00 A 46 1.00
125 871 0 0 2 873 1.00 0.00 0.00 0.00 A 51 1.00
126 1 0 0 710 711 0.00 0.00 0.00 1.00 C 51 1.00
127 0 0 0 871 871 0.00 0.00 0.00 1.00 C 61 1.00
128 0 0 0 927 927 0.00 0.00 0.00 1.00 C 58 1.00
129 0 9 0 750 759 0.00 0.01 0.00 0.99 C 58 0.99
130 0 717 0 37 754 0.00 0.95 0.00 0.05 T 58 0.95
131 0 0 0 1034 1034 0.00 0.00 0.00 1.00 C 58 1.00
132 0 0 0 835 835 0.00 0.00 0.00 1.00 C 58 1.00
133 0 0 0 768 768 0.00 0.00 0.00 1.00 C 58 1.00
134 0 0 0 647 647 0.00 0.00 0.00 1.00 C 58 1.00
135 542 0 0 2 544 1.00 0.00 0.00 0.00 A 58 1.00
136 582 0 0 0 582 1.00 0.00 0.00 0.00 A 58 1.00
137 745 0 0 0 745 1.00 0.00 0.00 0.00 A 58 1.00
138 663 0 0 0 663 1.00 0.00 0.00 0.00 A 51 1.00
139 0 0 0 490 490 0.00 0.00 0.00 1.00 C 51 1.00
140 137 0 481 2 620 0.22 0.00 0.78 0.00 G 34 0.78
141 676 0 0 0 676 1.00 0.00 0.00 0.00 A 58 1.00
142 831 0 0 0 831 1.00 0.00 0.00 0.00 A 51 1.00
143 580 0 0 0 580 1.00 0.00 0.00 0.00 A 58 1.00
144 1 6 0 580 587 0.00 0.01 0.00 0.99 C 58 0.99
145 0 585 0 2 587 0.00 1.00 0.00 0.00 T 58 1.00
146 907 2 0 0 909 1.00 0.00 0.00 0.00 A 58 1.00
147 647 0 0 1 648 1.00 0.00 0.00 0.00 A 58 1.00
148 1 0 140 518 659 0.00 0.00 0.21 0.79 C 34 0.79
149 29 0 668 2 699 0.04 0.00 0.96 0.00 G 34 0.96
150 834 0 0 2 836 1.00 0.00 0.00 0.00 A 58 1.00
151 0 0 0 733 733 0.00 0.00 0.00 1.00 C 58 1.00
152 0 0 0 809 809 0.00 0.00 0.00 1.00 C 58 1.00
153 0 0 0 803 803 0.00 0.00 0.00 1.00 C 58 1.00
154 0 0 670 31 701 0.00 0.00 0.96 0.04 G 58 0.96
155 0 0 2 709 711 0.00 0.00 0.00 1.00 C 58 1.00
156 0 0 0 944 944 0.00 0.00 0.00 1.00 C 51 1.00
157 2 0 0 729 731 0.00 0.00 0.00 1.00 C 58 1.00
158 569 0 0 38 607 0.94 0.00 0.00 0.06 A 58 0.94
159 2 0 0 746 748 0.00 0.00 0.00 1.00 C 58 1.00
160 0 0 0 789 789 0.00 0.00 0.00 1.00 C 58 1.00
161 0 0 0 762 762 0.00 0.00 0.00 1.00 C 51 1.00
162 121 0 639 0 760 0.16 0.00 0.84 0.00 G 29 0.84
163 987 0 0 2 989 1.00 0.00 0.00 0.00 A 41 1.00
164 2 0 0 678 680 0.00 0.00 0.00 1.00 C 51 1.00
165 0 8 0 743 751 0.00 0.01 0.00 0.99 C 58 0.99
166 0 578 0 64 642 0.00 0.90 0.00 0.10 T 58 0.90
167 0 1 0 1007 1008 0.00 0.00 0.00 1.00 C 58 1.00
168 0 0 450 38 488 0.00 0.00 0.92 0.08 G 58 0.92
169 6 0 0 523 529 0.01 0.00 0.00 0.99 C 51 0.99
170 595 4 0 0 599 0.99 0.01 0.00 0.00 A 58 0.99
171 71 483 0 0 554 0.13 0.87 0.00 0.00 T 58 0.87
172 943 2 0 0 945 1.00 0.00 0.00 0.00 A 58 1.00
173 633 0 0 0 633 1.00 0.00 0.00 0.00 A 58 1.00
174 471 0 0 2 473 1.00 0.00 0.00 0.00 A 51 1.00
175 0 0 7 596 603 0.00 0.00 0.01 0.99 C 51 0.99
176 0 0 530 32 562 0.00 0.00 0.94 0.06 G 58 0.94
177 0 0 17 740 757 0.00 0.00 0.02 0.98 C 58 0.98
178 100 0 506 0 606 0.17 0.00 0.83 0.00 G 32 0.83
179 659 2 0 0 661 1.00 0.00 0.00 0.00 A 51 1.00
180 72 464 0 0 536 0.13 0.87 0.00 0.00 T 58 0.87
181 829 0 0 0 829 1.00 0.00 0.00 0.00 A 58 1.00
182 618 0 0 0 618 1.00 0.00 0.00 0.00 A 58 1.00
183 2 0 0 772 774 0.00 0.00 0.00 1.00 C 58 1.00
184 0 0 0 875 875 0.00 0.00 0.00 1.00 C 58 1.00
185 0 7 0 743 750 0.00 0.01 0.00 0.99 C 58 0.99
186 0 675 0 48 723 0.00 0.93 0.00 0.07 T 58 0.93
187 0 18 0 898 916 0.00 0.02 0.00 0.98 C 51 0.98
188 0 481 0 0 481 0.00 1.00 0.00 0.00 T 51 1.00
189 841 0 0 0 841 1.00 0.00 0.00 0.00 A 58 1.00
190 553 0 0 2 555 1.00 0.00 0.00 0.00 A 58 1.00
191 0 0 0 628 628 0.00 0.00 0.00 1.00 C 51 1.00
192 0 3 0 687 690 0.00 0.00 0.00 1.00 C 51 1.00
193 31 491 0 0 522 0.06 0.94 0.00 0.00 T 51 0.94
194 834 2 0 0 836 1.00 0.00 0.00 0.00 A 58 1.00
195 560 0 0 0 560 1.00 0.00 0.00 0.00 A 61 1.00
196 542 0 0 0 542 1.00 0.00 0.00 0.00 A 51 1.00
197 602 13 0 0 615 0.98 0.02 0.00 0.00 A 46 0.98
198 0 721 0 0 721 0.00 1.00 0.00 0.00 T 46 1.00
199 0 848 0 0 848 0.00 1.00 0.00 0.00 T 51 1.00
200 794 0 0 2 796 1.00 0.00 0.00 0.00 A 58 1.00
201 0 3 0 575 578 0.00 0.01 0.00 0.99 C 58 0.99
202 164 450 0 2 616 0.27 0.73 0.00 0.00 T 34 0.73
203 854 2 0 0 856 1.00 0.00 0.00 0.00 A 58 1.00
204 580 0 0 0 580 1.00 0.00 0.00 0.00 A 58 1.00
205 425 0 0 84 509 0.83 0.00 0.00 0.17 A 34 0.83
206 0 0 0 634 634 0.00 0.00 0.00 1.00 C 58 1.00
207 0 0 0 787 787 0.00 0.00 0.00 1.00 C 58 1.00
208 0 79 0 429 508 0.00 0.16 0.00 0.84 C 34 0.84
209 0 768 0 3 771 0.00 1.00 0.00 0.00 T 58 1.00
210 10 1012 0 0 1022 0.01 0.99 0.00 0.00 T 58 0.99
211 83 695 0 0 778 0.11 0.89 0.00 0.00 T 58 0.89
212 769 0 2 0 771 1.00 0.00 0.00 0.00 A 58 1.00
213 148 7 555 0 710 0.21 0.01 0.78 0.00 G 29 0.78
214 0 453 309 0 762 0.00 0.59 0.41 0.00 T 25 0.59
215 19 0 444 0 463 0.04 0.00 0.96 0.00 G 41 0.96
216 507 0 248 0 755 0.67 0.00 0.33 0.00 A 31 0.67
217 1 0 824 0 825 0.00 0.00 1.00 0.00 G 46 1.00
218 0 0 1023 0 1023 0.00 0.00 1.00 0.00 G 58 1.00
219 0 8 673 0 681 0.00 0.01 0.99 0.00 G 58 0.99
220 0 627 1 0 628 0.00 1.00 0.00 0.00 T 51 1.00
221 237 597 0 0 834 0.28 0.72 0.00 0.00 T 32 0.72
222 861 2 0 0 863 1.00 0.00 0.00 0.00 A 48 1.00
223 696 150 0 0 846 0.82 0.18 0.00 0.00 A 30 0.82
224 0 931 0 0 931 0.00 1.00 0.00 0.00 T 20 1.00
225 825 1834 0 0 2659 0.31 0.69 0.00 0.00 T 24 0.69
226 2995 8 0 0 3003 1.00 0.00 0.00 0.00 A 30 1.00
227 407 0 0 0 407 1.00 0.00 0.00 0.00 A 22 1.00
228 12 0 3 3 18 0.67 0.00 0.17 0.17 A 5 0.67

Quality report

Trimming thresholds :

  • Trimming Method : M1
  • Minimum base error probability : 0.001 %
  • Minimum Phred quality score : 30
Raw sequence information Values
Raw sequence length : 228 bp
Mean of raw sequence Phred quality scores : 44.52
Quality report - Trimmed sequence information Values
Trimmed sequence length : 197 bp
Trimmed sequence start position : 25
Trimmed sequence end position : 222
Mean of trimmed sequence Phred quality scores : 48.5

Mixed base peak report

Trimming thresholds :

  • Minimum primary peak ratio for a position to be considered non-mixed : 0.75
  • Minimum of non-mixed positions percentage in the trimmed sequence to be considered non-mixed : 75 %
  • Minimum number of consecutive non-mixed positions at extremities to get a non-mixed positions percentage above threshold for the trimmed sequence (computed) : 3 bp
Raw sequence information Values
Raw sequence length : 228 bp
Mean of raw sequence primary peak ratios : 0.95
Percentage of non-mixed positions on raw sequence : 91.23 %
Mixed peak report - Trimmed sequence information Values
Trimmed sequence length : 217 bp
Trimmed sequence start position : 8
Trimmed sequence end position : 224
Mean of trimmed sequence primary peak ratios : 0.95
Percentage of non-mixed positions on trimmed sequence : 93.09 %

Trimming plot

Final trimmed sequence

Sequence
Final trimmed sequence information Values
Length : 198 bp
Start position : 25
End position : 222
Mean of Phred quality scores : 48.49
Mean of primary peak ratio : 0.95
Percentage of non-mixed positions : 93.43 %

Sequence of primary peaks:

## ACCTTAATTACTATCCCTCTTATAGAGGGTTAATTACCGCCCCCCGTACCGCTAATTAACTAAAAATTCACCTACCGACCACAACCAATCAACAACGCGAACCCCTCCCCAAAACGAAACTAACGACCCGCCCACCCGACCTCGCATAAACGCGATAACCCTCTAACCTAAAATTACTAAACCCTTTAGTGAGGGTTA
Chromatogram

Open chromatogram file in a new tab

Table
Position A peak T peak G peak C peak Total A ratio T ratio G ratio C ratio Primary base Quality score Primary ratio
25 1075 0 0 0 1075 1.00 0.00 0.00 0.00 A 46 1.00
26 0 0 0 575 575 0.00 0.00 0.00 1.00 C 41 1.00
27 186 0 0 710 896 0.21 0.00 0.00 0.79 C 40 0.79
28 0 516 0 1 517 0.00 1.00 0.00 0.00 T 40 1.00
29 0 226 0 0 226 0.00 1.00 0.00 0.00 T 10 1.00
30 902 0 0 0 902 1.00 0.00 0.00 0.00 A 18 1.00
31 922 0 0 173 1095 0.84 0.00 0.00 0.16 A 45 0.84
32 0 648 0 0 648 0.00 1.00 0.00 0.00 T 48 1.00
33 0 1064 171 0 1235 0.00 0.86 0.14 0.00 T 49 0.86
34 1135 0 0 1 1136 1.00 0.00 0.00 0.00 A 49 1.00
35 0 1 0 666 667 0.00 0.00 0.00 1.00 C 44 1.00
36 0 519 0 0 519 0.00 1.00 0.00 0.00 T 25 1.00
37 781 0 0 352 1133 0.69 0.00 0.00 0.31 A 8 0.69
38 0 441 0 0 441 0.00 1.00 0.00 0.00 T 8 1.00
39 2 0 0 1264 1266 0.00 0.00 0.00 1.00 C 45 1.00
40 212 0 0 677 889 0.24 0.00 0.00 0.76 C 20 0.76
41 0 1 0 832 833 0.00 0.00 0.00 1.00 C 20 1.00
42 0 805 0 0 805 0.00 1.00 0.00 0.00 T 44 1.00
43 0 0 0 236 236 0.00 0.00 0.00 1.00 C 27 1.00
44 259 1197 0 0 1456 0.18 0.82 0.00 0.00 T 29 0.82
45 592 816 0 0 1408 0.42 0.58 0.00 0.00 T 24 0.58
46 1487 0 0 0 1487 1.00 0.00 0.00 0.00 A 25 1.00
47 0 390 336 0 726 0.00 0.54 0.46 0.00 T 6 0.54
48 594 558 2 0 1154 0.51 0.48 0.00 0.00 A 6 0.51
49 214 2 652 0 868 0.25 0.00 0.75 0.00 G 20 0.75
50 1051 0 0 0 1051 1.00 0.00 0.00 0.00 A 25 1.00
51 2 0 1060 676 1738 0.00 0.00 0.61 0.39 G 10 0.61
52 0 0 1385 413 1798 0.00 0.00 0.77 0.23 G 15 0.77
53 0 1 868 537 1406 0.00 0.00 0.62 0.38 G 11 0.62
54 0 742 0 540 1282 0.00 0.58 0.00 0.42 T 16 0.58
55 0 706 524 0 1230 0.00 0.57 0.43 0.00 T 16 0.57
56 1458 0 0 0 1458 1.00 0.00 0.00 0.00 A 30 1.00
57 1264 0 0 0 1264 1.00 0.00 0.00 0.00 A 36 1.00
58 358 895 0 0 1253 0.29 0.71 0.00 0.00 T 37 0.71
59 0 2461 0 3 2464 0.00 1.00 0.00 0.00 T 16 1.00
60 3929 6 0 376 4311 0.91 0.00 0.00 0.09 A 17 0.91
61 87 0 0 464 551 0.16 0.00 0.00 0.84 C 25 0.84
62 0 0 0 545 545 0.00 0.00 0.00 1.00 C 30 1.00
63 0 0 594 13 607 0.00 0.00 0.98 0.02 G 51 0.98
64 0 0 0 675 675 0.00 0.00 0.00 1.00 C 52 1.00
65 0 0 0 850 850 0.00 0.00 0.00 1.00 C 54 1.00
66 0 0 0 777 777 0.00 0.00 0.00 1.00 C 55 1.00
67 0 0 0 889 889 0.00 0.00 0.00 1.00 C 61 1.00
68 0 0 0 776 776 0.00 0.00 0.00 1.00 C 61 1.00
69 0 0 0 686 686 0.00 0.00 0.00 1.00 C 58 1.00
70 0 0 687 0 687 0.00 0.00 1.00 0.00 G 58 1.00
71 0 389 0 0 389 0.00 1.00 0.00 0.00 T 28 1.00
72 735 0 0 0 735 1.00 0.00 0.00 0.00 A 51 1.00
73 1 0 0 771 772 0.00 0.00 0.00 1.00 C 51 1.00
74 0 0 0 708 708 0.00 0.00 0.00 1.00 C 58 1.00
75 0 0 751 31 782 0.00 0.00 0.96 0.04 G 58 0.96
76 0 0 1 550 551 0.00 0.00 0.00 1.00 C 58 1.00
77 0 561 0 0 561 0.00 1.00 0.00 0.00 T 58 1.00
78 666 0 0 0 666 1.00 0.00 0.00 0.00 A 58 1.00
79 709 0 0 0 709 1.00 0.00 0.00 0.00 A 58 1.00
80 1 547 0 0 548 0.00 1.00 0.00 0.00 T 58 1.00
81 0 826 0 0 826 0.00 1.00 0.00 0.00 T 58 1.00
82 811 0 0 0 811 1.00 0.00 0.00 0.00 A 58 1.00
83 478 0 0 0 478 1.00 0.00 0.00 0.00 A 58 1.00
84 1 0 0 471 472 0.00 0.00 0.00 1.00 C 58 1.00
85 0 542 0 0 542 0.00 1.00 0.00 0.00 T 58 1.00
86 771 1 0 0 772 1.00 0.00 0.00 0.00 A 61 1.00
87 543 0 0 0 543 1.00 0.00 0.00 0.00 A 58 1.00
88 510 0 0 0 510 1.00 0.00 0.00 0.00 A 58 1.00
89 682 0 0 0 682 1.00 0.00 0.00 0.00 A 51 1.00
90 557 0 0 0 557 1.00 0.00 0.00 0.00 A 51 1.00
91 1 655 0 0 656 0.00 1.00 0.00 0.00 T 51 1.00
92 0 858 0 2 860 0.00 1.00 0.00 0.00 T 51 1.00
93 1 0 0 725 726 0.00 0.00 0.00 1.00 C 51 1.00
94 372 0 0 22 394 0.94 0.00 0.00 0.06 A 51 0.94
95 0 0 0 612 612 0.00 0.00 0.00 1.00 C 51 1.00
96 0 2 0 688 690 0.00 0.00 0.00 1.00 C 58 1.00
97 0 615 0 2 617 0.00 1.00 0.00 0.00 T 58 1.00
98 885 0 0 2 887 1.00 0.00 0.00 0.00 A 58 1.00
99 0 0 0 635 635 0.00 0.00 0.00 1.00 C 58 1.00
100 0 0 0 594 594 0.00 0.00 0.00 1.00 C 58 1.00
101 2 0 743 2 747 0.00 0.00 0.99 0.00 G 41 0.99
102 906 0 2 2 910 1.00 0.00 0.00 0.00 A 51 1.00
103 1 0 0 666 667 0.00 0.00 0.00 1.00 C 51 1.00
104 1 0 0 600 601 0.00 0.00 0.00 1.00 C 51 1.00
105 507 0 0 0 507 1.00 0.00 0.00 0.00 A 58 1.00
106 2 0 0 528 530 0.00 0.00 0.00 1.00 C 61 1.00
107 476 0 0 2 478 1.00 0.00 0.00 0.00 A 58 1.00
108 518 0 0 2 520 1.00 0.00 0.00 0.00 A 58 1.00
109 2 0 0 589 591 0.00 0.00 0.00 1.00 C 58 1.00
110 0 0 0 612 612 0.00 0.00 0.00 1.00 C 58 1.00
111 549 0 0 0 549 1.00 0.00 0.00 0.00 A 58 1.00
112 563 2 0 0 565 1.00 0.00 0.00 0.00 A 58 1.00
113 0 493 0 0 493 0.00 1.00 0.00 0.00 T 58 1.00
114 0 2 0 827 829 0.00 0.00 0.00 1.00 C 58 1.00
115 496 0 0 0 496 1.00 0.00 0.00 0.00 A 58 1.00
116 461 0 0 0 461 1.00 0.00 0.00 0.00 A 58 1.00
117 4 0 0 487 491 0.01 0.00 0.00 0.99 C 58 0.99
118 552 0 0 2 554 1.00 0.00 0.00 0.00 A 58 1.00
119 498 0 0 0 498 1.00 0.00 0.00 0.00 A 58 1.00
120 2 0 0 578 580 0.00 0.00 0.00 1.00 C 51 1.00
121 0 0 604 7 611 0.00 0.00 0.99 0.01 G 51 0.99
122 0 0 18 641 659 0.00 0.00 0.03 0.97 C 58 0.97
123 7 0 477 0 484 0.01 0.00 0.99 0.00 G 51 0.99
124 688 0 0 0 688 1.00 0.00 0.00 0.00 A 46 1.00
125 871 0 0 2 873 1.00 0.00 0.00 0.00 A 51 1.00
126 1 0 0 710 711 0.00 0.00 0.00 1.00 C 51 1.00
127 0 0 0 871 871 0.00 0.00 0.00 1.00 C 61 1.00
128 0 0 0 927 927 0.00 0.00 0.00 1.00 C 58 1.00
129 0 9 0 750 759 0.00 0.01 0.00 0.99 C 58 0.99
130 0 717 0 37 754 0.00 0.95 0.00 0.05 T 58 0.95
131 0 0 0 1034 1034 0.00 0.00 0.00 1.00 C 58 1.00
132 0 0 0 835 835 0.00 0.00 0.00 1.00 C 58 1.00
133 0 0 0 768 768 0.00 0.00 0.00 1.00 C 58 1.00
134 0 0 0 647 647 0.00 0.00 0.00 1.00 C 58 1.00
135 542 0 0 2 544 1.00 0.00 0.00 0.00 A 58 1.00
136 582 0 0 0 582 1.00 0.00 0.00 0.00 A 58 1.00
137 745 0 0 0 745 1.00 0.00 0.00 0.00 A 58 1.00
138 663 0 0 0 663 1.00 0.00 0.00 0.00 A 51 1.00
139 0 0 0 490 490 0.00 0.00 0.00 1.00 C 51 1.00
140 137 0 481 2 620 0.22 0.00 0.78 0.00 G 34 0.78
141 676 0 0 0 676 1.00 0.00 0.00 0.00 A 58 1.00
142 831 0 0 0 831 1.00 0.00 0.00 0.00 A 51 1.00
143 580 0 0 0 580 1.00 0.00 0.00 0.00 A 58 1.00
144 1 6 0 580 587 0.00 0.01 0.00 0.99 C 58 0.99
145 0 585 0 2 587 0.00 1.00 0.00 0.00 T 58 1.00
146 907 2 0 0 909 1.00 0.00 0.00 0.00 A 58 1.00
147 647 0 0 1 648 1.00 0.00 0.00 0.00 A 58 1.00
148 1 0 140 518 659 0.00 0.00 0.21 0.79 C 34 0.79
149 29 0 668 2 699 0.04 0.00 0.96 0.00 G 34 0.96
150 834 0 0 2 836 1.00 0.00 0.00 0.00 A 58 1.00
151 0 0 0 733 733 0.00 0.00 0.00 1.00 C 58 1.00
152 0 0 0 809 809 0.00 0.00 0.00 1.00 C 58 1.00
153 0 0 0 803 803 0.00 0.00 0.00 1.00 C 58 1.00
154 0 0 670 31 701 0.00 0.00 0.96 0.04 G 58 0.96
155 0 0 2 709 711 0.00 0.00 0.00 1.00 C 58 1.00
156 0 0 0 944 944 0.00 0.00 0.00 1.00 C 51 1.00
157 2 0 0 729 731 0.00 0.00 0.00 1.00 C 58 1.00
158 569 0 0 38 607 0.94 0.00 0.00 0.06 A 58 0.94
159 2 0 0 746 748 0.00 0.00 0.00 1.00 C 58 1.00
160 0 0 0 789 789 0.00 0.00 0.00 1.00 C 58 1.00
161 0 0 0 762 762 0.00 0.00 0.00 1.00 C 51 1.00
162 121 0 639 0 760 0.16 0.00 0.84 0.00 G 29 0.84
163 987 0 0 2 989 1.00 0.00 0.00 0.00 A 41 1.00
164 2 0 0 678 680 0.00 0.00 0.00 1.00 C 51 1.00
165 0 8 0 743 751 0.00 0.01 0.00 0.99 C 58 0.99
166 0 578 0 64 642 0.00 0.90 0.00 0.10 T 58 0.90
167 0 1 0 1007 1008 0.00 0.00 0.00 1.00 C 58 1.00
168 0 0 450 38 488 0.00 0.00 0.92 0.08 G 58 0.92
169 6 0 0 523 529 0.01 0.00 0.00 0.99 C 51 0.99
170 595 4 0 0 599 0.99 0.01 0.00 0.00 A 58 0.99
171 71 483 0 0 554 0.13 0.87 0.00 0.00 T 58 0.87
172 943 2 0 0 945 1.00 0.00 0.00 0.00 A 58 1.00
173 633 0 0 0 633 1.00 0.00 0.00 0.00 A 58 1.00
174 471 0 0 2 473 1.00 0.00 0.00 0.00 A 51 1.00
175 0 0 7 596 603 0.00 0.00 0.01 0.99 C 51 0.99
176 0 0 530 32 562 0.00 0.00 0.94 0.06 G 58 0.94
177 0 0 17 740 757 0.00 0.00 0.02 0.98 C 58 0.98
178 100 0 506 0 606 0.17 0.00 0.83 0.00 G 32 0.83
179 659 2 0 0 661 1.00 0.00 0.00 0.00 A 51 1.00
180 72 464 0 0 536 0.13 0.87 0.00 0.00 T 58 0.87
181 829 0 0 0 829 1.00 0.00 0.00 0.00 A 58 1.00
182 618 0 0 0 618 1.00 0.00 0.00 0.00 A 58 1.00
183 2 0 0 772 774 0.00 0.00 0.00 1.00 C 58 1.00
184 0 0 0 875 875 0.00 0.00 0.00 1.00 C 58 1.00
185 0 7 0 743 750 0.00 0.01 0.00 0.99 C 58 0.99
186 0 675 0 48 723 0.00 0.93 0.00 0.07 T 58 0.93
187 0 18 0 898 916 0.00 0.02 0.00 0.98 C 51 0.98
188 0 481 0 0 481 0.00 1.00 0.00 0.00 T 51 1.00
189 841 0 0 0 841 1.00 0.00 0.00 0.00 A 58 1.00
190 553 0 0 2 555 1.00 0.00 0.00 0.00 A 58 1.00
191 0 0 0 628 628 0.00 0.00 0.00 1.00 C 51 1.00
192 0 3 0 687 690 0.00 0.00 0.00 1.00 C 51 1.00
193 31 491 0 0 522 0.06 0.94 0.00 0.00 T 51 0.94
194 834 2 0 0 836 1.00 0.00 0.00 0.00 A 58 1.00
195 560 0 0 0 560 1.00 0.00 0.00 0.00 A 61 1.00
196 542 0 0 0 542 1.00 0.00 0.00 0.00 A 51 1.00
197 602 13 0 0 615 0.98 0.02 0.00 0.00 A 46 0.98
198 0 721 0 0 721 0.00 1.00 0.00 0.00 T 46 1.00
199 0 848 0 0 848 0.00 1.00 0.00 0.00 T 51 1.00
200 794 0 0 2 796 1.00 0.00 0.00 0.00 A 58 1.00
201 0 3 0 575 578 0.00 0.01 0.00 0.99 C 58 0.99
202 164 450 0 2 616 0.27 0.73 0.00 0.00 T 34 0.73
203 854 2 0 0 856 1.00 0.00 0.00 0.00 A 58 1.00
204 580 0 0 0 580 1.00 0.00 0.00 0.00 A 58 1.00
205 425 0 0 84 509 0.83 0.00 0.00 0.17 A 34 0.83
206 0 0 0 634 634 0.00 0.00 0.00 1.00 C 58 1.00
207 0 0 0 787 787 0.00 0.00 0.00 1.00 C 58 1.00
208 0 79 0 429 508 0.00 0.16 0.00 0.84 C 34 0.84
209 0 768 0 3 771 0.00 1.00 0.00 0.00 T 58 1.00
210 10 1012 0 0 1022 0.01 0.99 0.00 0.00 T 58 0.99
211 83 695 0 0 778 0.11 0.89 0.00 0.00 T 58 0.89
212 769 0 2 0 771 1.00 0.00 0.00 0.00 A 58 1.00
213 148 7 555 0 710 0.21 0.01 0.78 0.00 G 29 0.78
214 0 453 309 0 762 0.00 0.59 0.41 0.00 T 25 0.59
215 19 0 444 0 463 0.04 0.00 0.96 0.00 G 41 0.96
216 507 0 248 0 755 0.67 0.00 0.33 0.00 A 31 0.67
217 1 0 824 0 825 0.00 0.00 1.00 0.00 G 46 1.00
218 0 0 1023 0 1023 0.00 0.00 1.00 0.00 G 58 1.00
219 0 8 673 0 681 0.00 0.01 0.99 0.00 G 58 0.99
220 0 627 1 0 628 0.00 1.00 0.00 0.00 T 51 1.00
221 237 597 0 0 834 0.28 0.72 0.00 0.00 T 32 0.72
222 861 2 0 0 863 1.00 0.00 0.00 0.00 A 48 1.00

Alignments

Sequencing result #1

Sequencing result #1 is aligned on both sense and antisense bisulfite converted DNA sequences to determine the sequencing direction as forward or reverse.

Warning: Trimmed sequence from the sequencing result #1 was found with insufficient length or insufficient quality and will not be used.

Alignment as forward

Trimmed sequence of primary peaks from sequencing result #1 is aligned with bisulfite converted reference DNA sense sequence

Alignment as reverse

Trimmed sequence of primary peaks from sequencing result #1 is aligned with bisulfite converted reference DNA antisense sequence

Direction determination

Warning: Insufficient quality of trimmed sequence for direction determination.

Sequencing result #2

Sequencing result #2 is aligned on both sense and antisense bisulfite converted DNA sequences to determine the sequencing direction as forward or reverse.

Alignment as forward

Trimmed sequence of primary peaks from sequencing result #2 is aligned with bisulfite converted reference DNA sense sequence

## ########################################
## # Program: Biostrings (version 2.64.0), a Bioconductor package
## # Rundate: Sat Jun  4 11:17:48 2022
## ########################################
## #=======================================
## #
## # Aligned_sequences: 2
## # 1: P1
## # 2: S1
## # Matrix: NA
## # Gap_penalty: 14.0
## # Extend_penalty: 4.0
## #
## # Length: 10
## # Identity:      10/10 (100.0%)
## # Similarity:    NA/10 (NA%)
## # Gaps:           0/10 (0.0%)
## # Score: 19.81756
## #
## #
## #=======================================
## 
## P1                23 TAGAGGGTTA     32
##                      ||||||||||
## S1                85 TAGAGGGTTA     94
## 
## 
## #---------------------------------------
## #---------------------------------------

Alignment as reverse

Trimmed sequence of primary peaks from sequencing result #2 is aligned with bisulfite converted reference DNA antisense sequence

## ########################################
## # Program: Biostrings (version 2.64.0), a Bioconductor package
## # Rundate: Sat Jun  4 11:17:48 2022
## ########################################
## #=======================================
## #
## # Aligned_sequences: 2
## # 1: P1
## # 2: S1
## # Matrix: NA
## # Gap_penalty: 14.0
## # Extend_penalty: 4.0
## #
## # Length: 146
## # Identity:     146/146 (100.0%)
## # Similarity:    NA/146 (NA%)
## # Gaps:           0/146 (0.0%)
## # Score: 289.336
## #
## #
## #=======================================
## 
## P1                36 ACCGCCCCCCGTACCGCTAA     55
##                      ||||||||||||||||||||
## S1               128 ACCGCCCCCCGTACCGCTAA    147
## 
## P1                56 TTAACTAAAAATTCACCTAC     75
##                      ||||||||||||||||||||
## S1               148 TTAACTAAAAATTCACCTAC    167
## 
## P1                76 CGACCACAACCAATCAACAA     95
##                      ||||||||||||||||||||
## S1               168 CGACCACAACCAATCAACAA    187
## 
## P1                96 CGCGAACCCCTCCCCAAAAC    115
##                      ||||||||||||||||||||
## S1               188 CGCGAACCCCTCCCCAAAAC    207
## 
## P1               116 GAAACTAACGACCCGCCCAC    135
##                      ||||||||||||||||||||
## S1               208 GAAACTAACGACCCGCCCAC    227
## 
## P1               136 CCGACCTCGCATAAACGCGA    155
##                      ||||||||||||||||||||
## S1               228 CCGACCTCGCATAAACGCGA    247
## 
## P1               156 TAACCCTCTAACCTAAAATT    175
##                      ||||||||||||||||||||
## S1               248 TAACCCTCTAACCTAAAATT    267
## 
## P1               176 ACTAAA    181
##                      ||||||
## S1               268 ACTAAA    273
## 
## 
## #---------------------------------------
## #---------------------------------------

Direction determination

Sequencing result #2 corresponds to reverse direction

Forward

To find nucleotides of reference DNA sequence positions on sequencing result, the trimmed sequence of primary peaks from forward sequencing results is aligned with bisulfite converted reference DNA sense sequence.

Alignment

Warning: Insufficient length or quality of trimmed forward sequencing.

Aligned sequences

Warning: Insufficient length or quality of trimmed forward sequencing.

Reverse

To find nucleotides of reference DNA sequence positions on sequencing result, the trimmed sequence of primary peaks from reverse sequencing results is aligned with bisulfite converted reference DNA antisense sequence.

Alignment

## ########################################
## # Program: Biostrings (version 2.64.0), a Bioconductor package
## # Rundate: Sat Jun  4 11:17:49 2022
## ########################################
## #=======================================
## #
## # Aligned_sequences: 2
## # 1: P1
## # 2: S1
## # Matrix: NA
## # Gap_penalty: 14.0
## # Extend_penalty: 4.0
## #
## # Length: 146
## # Identity:     146/146 (100.0%)
## # Similarity:    NA/146 (NA%)
## # Gaps:           0/146 (0.0%)
## # Score: 289.336
## #
## #
## #=======================================
## 
## P1                36 ACCGCCCCCCGTACCGCTAA     55
##                      ||||||||||||||||||||
## S1               128 ACCGCCCCCCGTACCGCTAA    147
## 
## P1                56 TTAACTAAAAATTCACCTAC     75
##                      ||||||||||||||||||||
## S1               148 TTAACTAAAAATTCACCTAC    167
## 
## P1                76 CGACCACAACCAATCAACAA     95
##                      ||||||||||||||||||||
## S1               168 CGACCACAACCAATCAACAA    187
## 
## P1                96 CGCGAACCCCTCCCCAAAAC    115
##                      ||||||||||||||||||||
## S1               188 CGCGAACCCCTCCCCAAAAC    207
## 
## P1               116 GAAACTAACGACCCGCCCAC    135
##                      ||||||||||||||||||||
## S1               208 GAAACTAACGACCCGCCCAC    227
## 
## P1               136 CCGACCTCGCATAAACGCGA    155
##                      ||||||||||||||||||||
## S1               228 CCGACCTCGCATAAACGCGA    247
## 
## P1               156 TAACCCTCTAACCTAAAATT    175
##                      ||||||||||||||||||||
## S1               248 TAACCCTCTAACCTAAAATT    267
## 
## P1               176 ACTAAA    181
##                      ||||||
## S1               268 ACTAAA    273
## 
## 
## #---------------------------------------
## #---------------------------------------

Aligned sequences

Aligned sequence from reverse sequencing result (Pattern P1):

Length: 146 bp 

## ACCGCCCCCCGTACCGCTAATTAACTAAAAATTCACCTACCGACCACAACCAATCAACAACGCGAACCCCTCCCCAAAACGAAACTAACGACCCGCCCACCCGACCTCGCATAAACGCGATAACCCTCTAACCTAAAATTACTAAA

Aligned sequence from bisulfite converted reference DNA antisense sequence (Subject S1):

Length: 146 bp 

## ACCGCCCCCCGTACCGCTAATTAACTAAAAATTCACCTACCGACCACAACCAATCAACAACGCGAACCCCTCCCCAAAACGAAACTAACGACCCGCCCACCCGACCTCGCATAAACGCGATAACCCTCTAACCTAAAATTACTAAA

Quality control

Summary

Thresholds Values
Minimum length of the aligned sequence : 30 bp
Minimum identity percentage of alignment : 75 %
Minimum of bisulfite conversion rate mean : 0.9
Direction Sequencing Length Identity Mismatch Indel in DNA reference Indel in sequencing Mean of conversion rates SD of conversion rates Quality Result
Reverse #2 146 100 0 0 0 1 0 Correct

Forward sequencing result could have not been trimmed due to poor quality.

Mismatch positions

Forward

Reverse

No mismatch positions in reverse alignment.

Insertions/deletions

Forward

Reverse

No insertions/deletions in reverse alignment.

Conversion rates

Combined

C number Bisulfite conversion rate Reverse
50 1.00
49 1.00
48 1.00
47 1.00
46 1.00
45 1.00
44 1.00
43 1.00
42 1.00
41 1.00
40 1.00
39 1.00
38 1.00
37 1.00
36 1.00
35 1.00
34 1.00
33 1.00
32 1.00
31 1.00
30 1.00
29 1.00
28 1.00
27 1.00
26 1.00
25 1.00
24 1.00
23 1.00
22 1.00
21 1.00
20 1.00
19 NaN

Forward

Reverse

C number Position in reference DNA Position in sequencing result (trimmed) Position in sequencing result (raw) A peak T peak G peak C peak Bisulfite conversion rate
50 146 54 78 666 0 0 0 1
49 150 58 82 811 0 0 0 1
48 151 59 83 478 0 0 0 1
47 154 62 86 771 1 0 0 1
46 156 64 88 510 0 0 0 1
45 157 65 89 682 0 0 0 1
44 158 66 90 557 0 0 0 1
43 166 74 98 885 0 0 2 1
42 170 78 102 906 0 2 2 1
41 176 84 108 518 0 0 2 1
40 184 92 116 461 0 0 0 1
39 187 95 119 498 0 0 0 1
38 192 100 124 688 0 0 0 1
37 204 112 136 582 0 0 0 1
36 205 113 137 745 0 0 0 1
35 206 114 138 663 0 0 0 1
34 209 117 141 676 0 0 0 1
33 211 119 143 580 0 0 0 1
32 214 122 146 907 2 0 0 1
31 218 126 150 834 0 0 2 1
30 231 139 163 987 0 0 2 1
29 241 149 173 633 0 0 0 1
28 247 155 179 659 2 0 0 1
27 249 157 181 829 0 0 0 1
26 258 166 190 553 0 0 2 1
25 262 170 194 834 2 0 0 1
24 263 171 195 560 0 0 0 1
23 265 173 197 602 13 0 0 1
22 268 176 200 794 0 0 2 1
21 272 180 204 580 0 0 0 1
20 273 181 205 425 0 0 84 1
19 274 182 206 0 0 0 634 NaN

Maximum aligned sequence

The maximum aligned sequence corresponds to the maximum sequence covered by at least one correct sequencing.

Length of max aligned sequence : 147 bp
Coordinates of max aligned sequence : chr16:68771007-68771153

Maximum aligned sequence (on bisulfite converted sense sequence from the plus strand sequence) :

## TTTTAGTAATTTTAGGTTAGAGGGTTATCGCGTTTATGCGAGGTCGGGTGGGCGGGTCGTTAGTTTCGTTTTGGGGAGGGGTTCGCGTTGTTGATTGGTTGTGGTCGGTAGGTGAATTTTTAGTTAATTAGCGGTACGGGGGGCGGT

Methylation

Combined

CG number Chromosome Start End Methylation Percentage Forward Methylation Percentage Reverse Methylation Percentage Average Methylation Percentage SD
17 chr16 68771150 68771151 NA 100.00 100.00 NA
16 chr16 68771143 68771144 NA 100.00 100.00 NA
15 chr16 68771138 68771139 NA 100.00 100.00 NA
14 chr16 68771112 68771113 NA 99.73 99.73 NA
13 chr16 68771092 68771093 NA 100.00 100.00 NA
12 chr16 68771090 68771091 NA 98.55 98.55 NA
11 chr16 68771073 68771074 NA 77.83 77.83 NA
10 chr16 68771064 68771065 NA 95.84 95.84 NA
9 chr16 68771059 68771060 NA 100.00 100.00 NA
8 chr16 68771051 68771052 NA 84.08 84.08 NA
7 chr16 68771045 68771046 NA 100.00 100.00 NA
6 chr16 68771037 68771038 NA 100.00 100.00 NA
5 chr16 68771035 68771036 NA 83.50 83.50 NA

Forward

Warning: No sequencing data from foward direction sequencing.

Reverse

CG number Chromosome Start End G position in reference DNA G position in sequencing result (trimmed) G position in sequencing result (raw) A peak T peak G peak C peak Methylation Percentage
17 chr16 68771150 68771151 131 39 63 0 0 594 13 100.00
16 chr16 68771143 68771144 138 46 70 0 0 687 0 100.00
15 chr16 68771138 68771139 143 51 75 0 0 751 31 100.00
14 chr16 68771112 68771113 169 77 101 2 0 743 2 99.73
13 chr16 68771092 68771093 189 97 121 0 0 604 7 100.00
12 chr16 68771090 68771091 191 99 123 7 0 477 0 98.55
11 chr16 68771073 68771074 208 116 140 137 0 481 2 77.83
10 chr16 68771064 68771065 217 125 149 29 0 668 2 95.84
9 chr16 68771059 68771060 222 130 154 0 0 670 31 100.00
8 chr16 68771051 68771052 230 138 162 121 0 639 0 84.08
7 chr16 68771045 68771046 236 144 168 0 0 450 38 100.00
6 chr16 68771037 68771038 244 152 176 0 0 530 32 100.00
5 chr16 68771035 68771036 246 154 178 100 0 506 0 83.50

Individual methylation plot

Output data

Directories

Methylation data file preview

CG_nb chromosome start end meth_F meth_R meth_avg meth_sd collection group rep clone alg_coord_start alg_coord_end
17 chr16 68771150 68771151 NA 100.00 100.00 NA High methylated DNA 2 NA 68771007 68771153
16 chr16 68771143 68771144 NA 100.00 100.00 NA High methylated DNA 2 NA 68771007 68771153
15 chr16 68771138 68771139 NA 100.00 100.00 NA High methylated DNA 2 NA 68771007 68771153
14 chr16 68771112 68771113 NA 99.73 99.73 NA High methylated DNA 2 NA 68771007 68771153
13 chr16 68771092 68771093 NA 100.00 100.00 NA High methylated DNA 2 NA 68771007 68771153
12 chr16 68771090 68771091 NA 98.55 98.55 NA High methylated DNA 2 NA 68771007 68771153
11 chr16 68771073 68771074 NA 77.83 77.83 NA High methylated DNA 2 NA 68771007 68771153
10 chr16 68771064 68771065 NA 95.84 95.84 NA High methylated DNA 2 NA 68771007 68771153
9 chr16 68771059 68771060 NA 100.00 100.00 NA High methylated DNA 2 NA 68771007 68771153
8 chr16 68771051 68771052 NA 84.08 84.08 NA High methylated DNA 2 NA 68771007 68771153
7 chr16 68771045 68771046 NA 100.00 100.00 NA High methylated DNA 2 NA 68771007 68771153
6 chr16 68771037 68771038 NA 100.00 100.00 NA High methylated DNA 2 NA 68771007 68771153
5 chr16 68771035 68771036 NA 83.50 83.50 NA High methylated DNA 2 NA 68771007 68771153